p53 ubiquitination by Mdm2: A never ending tail?

p53 function is of critical importance in suppressing human cancer formation, highlighted by the fact that the majority of human tumors harbor compromised p53 activity. In normal cells, p53 is held at low levels in a latent form and cellular stress results in the rapid stabilization of p53. Mdm2 mediates ubiquitin-dependent degradation of p53 which plays a key role in maintaining cellular p53 levels. Ubiquitination was, until recently, considered a straightforward system involved in p53 degradation, but recent work has demonstrated how ubiquitination can alter p53 activity, not stability. In this review we summarize current understanding on p53 ubiquitination by Mdm2 with a particular focus on how the balance between protein levels and other post-translational modifications will direct the p53 response.     

Effects of flowering groundcover vegetation on diversity and activity of wasps in a farm shelterbelt in temperate Australia

Significant worldwide interest in conservation biological control in agricultural systems currently exists but little information is available on the usefulness of this approach in farm forestry. In a field experiment conducted in a native vegetated shelterbelt in central-west New South Wales, we measured the diversity of wasps in plots comprising Eucalyptus blakelyi Maiden (Myrtaceae) trees with and without a groundcover of Lobularia maritima (L.) Desv. (Brassicaceae). Vacuum samples revealed a greater abundance and species richness of parasitic wasps in the plots comprising trees surrounded by the L. maritima groundcover. Cotesia sp. (Hymenoptera: Braconidae), Pteromalus sp. (Hymenoptera: Pteromalidae), Anagyrus sp. (Hymenoptera: Encyrtidae), Entedoninae sp. and Eulophidae sp. 1 (Hymenoptera: Eulophidae) were the most common taxa. These were more abundant also in the trees with the L. maritima groundcover. Ardozyga stratifera (Meyrick) (Lepidoptera: Gelechiidae) larvae, that were naturally infesting the E. blakelyi trees, were significantly more parasitized in the trees with the L. maritima groundcover. Results indicate that parasitic wasps associated with a native-tree shelterbelt in Australia were amenable to manipulation via groundcover vegetation.

Phenotypic population divergence in terrestrial vertebrates at macro scales

Phenotypic divergence between populations, i.e. how much phenotypes within a species vary geographically, is critical to many aspects of ecology and evolution, including eco-geographical trends, speciation and coexistence. Yet, the variation of divergence across species with different ecologies and distributions and the relative role of adaptive causes remains little understood. We predict that genetic control vs. phenotypic plasticity of traits, geographical distance and (assuming adaptation) environmental differences should explain much of the phenotypic variability between populations. We tested these predictions with body sizes of 1447 populations in 98 terrestrial vertebrate species. Population phenotypic variability differs strongly across species, and divergence increases with increasing levels of clade-typical phenotypic plasticity, the area covered by populations and body size. Geographical distance and environmental dissimilarity are similarly important predictors of divergence within species, highlighting a potential role for biotic and environmental conditions. Increased availability of phylogeographical and ecological data should facilitate further understanding of population divergence drivers at broad scales.     

Wood-nesting ants and their parasites in forests and coffee agroecosystems

Agricultural intensification is linked to reduced species richness and may limit the effectiveness of predators in agricultural systems. We studied the abundance, diversity, and species composition of wood-nesting ants and frequency of parasitism of poneromorph ants in coffee agroeco systems and a forest fragment in Chiapas, Mexico. In three farms differing in shade management and in a nearby forest fragment, we surveyed ants nesting in rotten wood. We collected pupae of all poneromorph ants encountered, and incubated pupae for 15 d to recover emerging ant parasites. If no parasites emerged, we dissected pupae to examine for parasitism. Overall, we found 63 ant morphospecies, 29 genera, and 7 subfamilies from 520 colonies. There were no significant differences in ant richness or abundance between the different sites. However, there were significant differences in the species composition of ants sampled in the four different sites. The parasitism rates of ants differed according to site; in the forest 77.7% of species were parasitized, and this number declined with increasing intensification in traditional polyculture (40%),commercial polyculture (25%), and shade monoculture (16.6%). For three of four poneromorph species found in >1 habitat, parasitism rates were higher in the more vegetatively complex sites. The result that both ant species composition and ant parasitism differed among by site indicates that coffee management intensification affects wood-nesting ant communities. Further, coffee intensification may significantly alter interactions between ants and their parasites, with possible implications for biological control in coffee agroecosystems.     

Relationships among timing of moult,moult duration and feather mass in long‐distance migratory passerines

Moult is a costly but necessary process in avian life, which displays two main temporal patterns within the annual cycle of birds (summer and winter moult). Timing of moult can affect its duration and consequently the amount of material invested in feathers, which could have a considerable influence on feather structure and functionality. In this study, we used two complementary approaches to test whether moult duration and feather mass vary in relation to the timing of moult. Firstly, we conducted a comparative study between a sample of long‐distance migratory passerine species which differ in moult pattern. Secondly, we took advantage of the willow warbler's Phylloscopus trochilus biannual moult, for which it is well‐known that winter moult takes longer than summer moult, to assess between‐moult variation in feather mass. Our comparative analysis showed that summer moulting species performed significantly shorter moults than winter moulters. We also detected that feathers produced in winter were comparatively heavier than those produced in summer, both in between‐species comparison and between moults of the willow warbler. These results suggest the existence of a trade‐off between moult speed and feather mass mediated by timing of moult, which could contribute to explain the diversity of moult patterns in passerines.     

The Kinetics of Cooperative Cofilin Binding Reveals Two States of the Cofilin-Actin Filament

The interaction of cofilin with actin filaments displays positive cooperativity. The equilibrium binding and associated thermodynamic properties of this interaction are well described by a simple, one-dimensional Ising model with nearest neighbor interactions. Here we evaluate the kinetic contributions to cooperative binding and the ability of this model to account for binding across a wide range of cofilin concentrations. A Monte Carlo-based simulation protocol that allows for nearest-neighbor interactions between adjacent binding sites was used to globally fit time courses of human cofilin binding to human nonmuscle (β-, γ-) actin filaments. Several extensions of the one-dimensional Ising model were tested, and a mechanism that includes isomerization of the actin filament was found to best account for time courses of association as well as irreversible dissociation from a saturated filament. This model predicts two equilibrium states of the cofilin-actin, or cofilactin, filament, and the resulting set of binding parameters are in agreement with equilibrium thermodynamic parameters. We conclude that despite its simplicity, this one-dimensional Ising model is a reliable model for analyzing and interpreting the energetics and kinetics of cooperative cofilin-actin filament interactions. The model predicts that severing activity associated with boundaries between bare and decorated segments will not be linear, but display a transient burst at short times on cofilin activation then dissipate due to a kinetic competition between severing activity and cofilin binding. A second peak of severing activity is predicted to arise from irreversible cofilin dissociation on inactivation. These behaviors predict what we believe to be novel mechanisms of cofilin severing and spatial regulation of actin filament turnover in cells. The methods developed for this system are generally applicable to the kinetic analysis of cooperative ligand binding to linear polymers.     

Ribosomal Interaction of Bacillus stearothermophilus Translation Initiation Factor IF2: Characterization of the Active Sites

InfB-encoded translation initiation factor IF2 contains a non-conserved N-terminal domain and two conserved domains (G and C) constituted by three (G1, G2 and G3) and two (C1 and C2) sub-domains. Here, we show that: (i) Bacillus stearothermophilus IF2 complements in vivo an Escherichia coli infB null mutation and (ii) the N-domain of B. stearothermophilus IF2, like that of E. coli IF2, provides a strong yet dispensable interaction with 30 S and 50 S subunits in spite of the lack of any size, sequence or structural homology between the N-domains of the two factors. Furthermore, the nature of the B. stearothermophilus IF2 sites involved in establishing the functional interactions with the ribosome was investigated by generating deletion, random and site-directed mutations within sub-domains G2 or G3 of a molecule carrying an H301Y substitution in switch II of the G2 module, which impairs the ribosome-dependent GTPase activity of IF2. By selecting suppressors of the dominant-lethal phenotype caused by the H301Y substitution, three independent mutants impaired in ribosome binding were identified; namely, S387P (in G2) and G420E and E424K (in G3). The functional properties of these mutants and those of the deletion mutants are compatible with the premise that IF2 interacts with 30 S and 50 S subunits via G3 and G2 modules, respectively. However, beyond this generalization, because the mutation in G2 resulted in a functional alteration of G3 and vice versa, our results indicate the existence of extensive “cross-talking” between these two modules, highlighting a harmonic conformational cooperation between G2 and G3 required for a functional interaction between IF2 and the two ribosomal subunits. It is noteworthy that the E424K mutant, which completely lacks GTPase activity, displays IF2 wild-type capacity in supporting initiation of dipeptide formation.